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 | Fusion Gene Summary |
| Fusion Gene ORF analysis |
| Fusion Genomic Features |
| Fusion Protein Features |
| Fusion Gene Sequence |
| Fusion Gene PPI analysis |
| Related Drugs |
| Related Diseases |
Fusion gene:GTF2B-BPI (FusionGDB2 ID:35166) |
Fusion Gene Summary for GTF2B-BPI |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: GTF2B-BPI | Fusion gene ID: 35166 | Hgene | Tgene | Gene symbol | GTF2B | BPI | Gene ID | 2959 | 671 |
| Gene name | general transcription factor IIB | bactericidal permeability increasing protein | |
| Synonyms | TF2B|TFIIB | BPIFD1|rBPI | |
| Cytomap | 1p22.2 | 20q11.23 | |
| Type of gene | protein-coding | protein-coding | |
| Description | transcription initiation factor IIBRNA polymerase II transcription factor IIBS300-IIgeneral transcription factor TFIIB | bactericidal permeability-increasing proteinBPI fold containing family D, member 1CAP 57recombinant BPI holoprotein, rBPI | |
| Modification date | 20200313 | 20200313 | |
| UniProtAcc | Q00403 | Q8NFQ6 | |
| Ensembl transtripts involved in fusion gene | ENST00000370500, ENST00000494819, | ENST00000489102, ENST00000451435, ENST00000262865, | |
| Fusion gene scores | * DoF score | 3 X 2 X 2=12 | 5 X 6 X 5=150 |
| # samples | 3 | 5 | |
| ** MAII score | log2(3/12*10)=1.32192809488736 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0 | log2(5/150*10)=-1.58496250072116 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
| Context | PubMed: GTF2B [Title/Abstract] AND BPI [Title/Abstract] AND fusion [Title/Abstract] | ||
| Most frequent breakpoint | GTF2B(89357166)-BPI(36962832), # samples:2 | ||
| Anticipated loss of major functional domain due to fusion event. | GTF2B-BPI seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF. GTF2B-BPI seems lost the major protein functional domain in Hgene partner, which is a transcription factor due to the frame-shifted ORF. | ||
| * DoF score (Degree of Frequency) = # partners X # break points X # cancer types ** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10) |
| Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Partner | Gene | GO ID | GO term | PubMed ID |
| Hgene | GTF2B | GO:0006366 | transcription by RNA polymerase II | 27193682 |
| Hgene | GTF2B | GO:0006367 | transcription initiation from RNA polymerase II promoter | 3029109 |
| Hgene | GTF2B | GO:0006473 | protein acetylation | 12931194 |
| Hgene | GTF2B | GO:0043923 | positive regulation by host of viral transcription | 24441171 |
| Hgene | GTF2B | GO:0051123 | RNA polymerase II preinitiation complex assembly | 3029109|9841876 |
| Hgene | GTF2B | GO:1904798 | positive regulation of core promoter binding | 9841876 |
| Tgene | BPI | GO:0032715 | negative regulation of interleukin-6 production | 8409400 |
| Tgene | BPI | GO:0032717 | negative regulation of interleukin-8 production | 8409400 |
| Tgene | BPI | GO:0032720 | negative regulation of tumor necrosis factor production | 8409400 |
| Tgene | BPI | GO:0043031 | negative regulation of macrophage activation | 8409400 |
| Fusion gene breakpoints across GTF2B (5'-gene) * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
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| Fusion gene breakpoints across BPI (3'-gene) * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
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| Fusion gene information from two resources (ChiTars 5.0 and ChimerDB 4.0) * All genome coordinats were lifted-over on hg19. * Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser. |
| Source | Disease | Sample | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
| ChimerDB4 | BRCA | TCGA-AR-A254-01A | GTF2B | chr1 | 89357166 | - | BPI | chr20 | 36959450 | + |
| ChimerDB4 | BRCA | TCGA-AR-A254-01A | GTF2B | chr1 | 89357166 | - | BPI | chr20 | 36962832 | + |
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Fusion Gene ORF analysis for GTF2B-BPI |
| Open reading frame (ORF) analsis of fusion genes based on Ensembl gene isoform structure. * Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser. |
| ORF | Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
| 5CDS-3UTR | ENST00000370500 | ENST00000489102 | GTF2B | chr1 | 89357166 | - | BPI | chr20 | 36959450 | + |
| 5CDS-3UTR | ENST00000370500 | ENST00000489102 | GTF2B | chr1 | 89357166 | - | BPI | chr20 | 36962832 | + |
| 5CDS-intron | ENST00000370500 | ENST00000451435 | GTF2B | chr1 | 89357166 | - | BPI | chr20 | 36959450 | + |
| 5CDS-intron | ENST00000370500 | ENST00000451435 | GTF2B | chr1 | 89357166 | - | BPI | chr20 | 36962832 | + |
| 5UTR-3CDS | ENST00000494819 | ENST00000262865 | GTF2B | chr1 | 89357166 | - | BPI | chr20 | 36959450 | + |
| 5UTR-3CDS | ENST00000494819 | ENST00000262865 | GTF2B | chr1 | 89357166 | - | BPI | chr20 | 36962832 | + |
| 5UTR-3UTR | ENST00000494819 | ENST00000489102 | GTF2B | chr1 | 89357166 | - | BPI | chr20 | 36959450 | + |
| 5UTR-3UTR | ENST00000494819 | ENST00000489102 | GTF2B | chr1 | 89357166 | - | BPI | chr20 | 36962832 | + |
| 5UTR-intron | ENST00000494819 | ENST00000451435 | GTF2B | chr1 | 89357166 | - | BPI | chr20 | 36959450 | + |
| 5UTR-intron | ENST00000494819 | ENST00000451435 | GTF2B | chr1 | 89357166 | - | BPI | chr20 | 36962832 | + |
| Frame-shift | ENST00000370500 | ENST00000262865 | GTF2B | chr1 | 89357166 | - | BPI | chr20 | 36959450 | + |
| In-frame | ENST00000370500 | ENST00000262865 | GTF2B | chr1 | 89357166 | - | BPI | chr20 | 36962832 | + |
| ORFfinder result based on the fusion transcript sequence of in-frame fusion genes. |
| Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | Seq length (transcript) | BP loci (transcript) | Predicted start (transcript) | Predicted stop (transcript) | Seq length (amino acids) |
| ENST00000370500 | GTF2B | chr1 | 89357166 | - | ENST00000262865 | BPI | chr20 | 36962832 | + | 637 | 136 | 37 | 315 | 92 |
| DeepORF prediction of the coding potential based on the fusion transcript sequence of in-frame fusion genes. DeepORF is a coding potential classifier based on convolutional neural network by comparing the real Ribo-seq data. If the no-coding score < 0.5 and coding score > 0.5, then the in-frame fusion transcript is predicted as being likely translated. |
| Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | No-coding score | Coding score |
| ENST00000370500 | ENST00000262865 | GTF2B | chr1 | 89357166 | - | BPI | chr20 | 36962832 | + | 0.26123652 | 0.7387635 |
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Fusion Genomic Features for GTF2B-BPI |
| FusionAI prediction of the potential fusion gene breakpoint based on the pre-mature RNA sequence context (+/- 5kb of individual partner genes, total 20kb length sequence). FusionAI is a fusion gene breakpoint classifier based on convolutional neural network by comparing the fusion positive and negative sequence context of ~ 20K fusion gene data. From here, we can have the relative potentency of the 20K genomic sequence how individual sequnce will be likely used as the gene fusion breakpoints. |
| Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | 1-p | p (fusion gene breakpoint) |
| GTF2B | chr1 | 89357165 | - | BPI | chr20 | 36959449 | + | 0.079062626 | 0.9209374 |
| GTF2B | chr1 | 89357165 | - | BPI | chr20 | 36962831 | + | 0.009170623 | 0.99082935 |
| GTF2B | chr1 | 89357165 | - | BPI | chr20 | 36959449 | + | 0.079062626 | 0.9209374 |
| GTF2B | chr1 | 89357165 | - | BPI | chr20 | 36962831 | + | 0.009170623 | 0.99082935 |
| Distribution of 44 human genomic features loci across 20kb length fusion breakpoint regions. We integrated a total of 44 different types of human genomic feature loci information across five big categories including virus integration sites, repeats, structural variants, chromatin states, and gene expression regulation. More details are in help page. |
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| Distribution of 44 human genomic features loci across 20kb length fusion breakpoint regions that are ovelapped with the top 1% feature importance score regions. More details are in help page. |
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Fusion Protein Features for GTF2B-BPI |
| Four levels of functional features of fusion genes Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr1:89357166/chr20:36962832) - FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels. - How to search 1. Put your fusion gene symbol. 2. Press the tab key until there will be shown the breakpoint information filled. 4. Go down and press 'Search' tab twice. 4. Go down to have the hyperlink of the search result. 5. Click the hyperlink. 6. See the FGviewer result for your fusion gene. |
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| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| GTF2B | BPI |
| FUNCTION: General transcription factor that plays a role in transcription initiation by RNA polymerase II (Pol II). Involved in the pre-initiation complex (PIC) formation and Pol II recruitment at promoter DNA (PubMed:1876184, PubMed:1946368, PubMed:1517211, PubMed:3818643, PubMed:3029109, PubMed:8413225, PubMed:8515820, PubMed:8516311, PubMed:8516312, PubMed:7601352, PubMed:9420329, PubMed:12931194, PubMed:27193682). Together with the TATA box-bound TBP forms the core initiation complex and provides a bridge between TBP and the Pol II-TFIIF complex (PubMed:8504927, PubMed:8413225, PubMed:8515820, PubMed:8516311, PubMed:8516312). Released from the PIC early following the onset of transcription during the initiation and elongation transition and reassociates with TBP during the next transcription cycle (PubMed:7601352). Associates with chromatin to core promoter-specific regions (PubMed:12931194, PubMed:24441171). Binds to two distinct DNA core promoter consensus sequence elements in a TBP-independent manner; these IIB-recognition elements (BREs) are localized immediately upstream (BREu), 5'-[GC][GC][GA]CGCC-3', and downstream (BREd), 5'-[GA]T[TGA][TG][GT][TG][TG]-3', of the TATA box element (PubMed:9420329, PubMed:16230532, PubMed:7675079, PubMed:10619841). Modulates transcription start site selection (PubMed:10318856). Exhibits also autoacetyltransferase activity that contributes to the activated transcription (PubMed:12931194). {ECO:0000269|PubMed:10318856, ECO:0000269|PubMed:10619841, ECO:0000269|PubMed:12931194, ECO:0000269|PubMed:1517211, ECO:0000269|PubMed:16230532, ECO:0000269|PubMed:1876184, ECO:0000269|PubMed:1946368, ECO:0000269|PubMed:24441171, ECO:0000269|PubMed:27193682, ECO:0000269|PubMed:3029109, ECO:0000269|PubMed:3818643, ECO:0000269|PubMed:7601352, ECO:0000269|PubMed:7675079, ECO:0000269|PubMed:8413225, ECO:0000269|PubMed:8504927, ECO:0000269|PubMed:8515820, ECO:0000269|PubMed:8516311, ECO:0000269|PubMed:8516312, ECO:0000269|PubMed:9420329}. |
| Retention analysis result of each fusion partner protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features. Here, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at * Minus value of BPloci means that the break pointn is located before the CDS. |
| - In-frame and retained protein feature among the 13 regional features. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
| Tgene | BPI | chr1:89357166 | chr20:36962832 | ENST00000262865 | 11 | 15 | 468_487 | 428 | 488.0 | Region | Central sheet%2C part 3 |
| - In-frame and not-retained protein feature among the 13 regional features. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
| Hgene | GTF2B | chr1:89357166 | chr20:36962832 | ENST00000370500 | - | 1 | 7 | 189_193 | 5 | 317.0 | Region | Core promoter DNA-binding |
| Hgene | GTF2B | chr1:89357166 | chr20:36962832 | ENST00000370500 | - | 1 | 7 | 244_316 | 5 | 317.0 | Region | Necessary for TATA box-bound TBP complex formation |
| Hgene | GTF2B | chr1:89357166 | chr20:36962832 | ENST00000370500 | - | 1 | 7 | 249_252 | 5 | 317.0 | Region | Core promoter DNA-binding |
| Hgene | GTF2B | chr1:89357166 | chr20:36962832 | ENST00000370500 | - | 1 | 7 | 283_286 | 5 | 317.0 | Region | Core promoter DNA-binding |
| Hgene | GTF2B | chr1:89357166 | chr20:36962832 | ENST00000370500 | - | 1 | 7 | 124_200 | 5 | 317.0 | Repeat | Note=1 |
| Hgene | GTF2B | chr1:89357166 | chr20:36962832 | ENST00000370500 | - | 1 | 7 | 218_294 | 5 | 317.0 | Repeat | Note=2 |
| Hgene | GTF2B | chr1:89357166 | chr20:36962832 | ENST00000370500 | - | 1 | 7 | 11_42 | 5 | 317.0 | Zinc finger | TFIIB-type |
| Tgene | BPI | chr1:89357166 | chr20:36962832 | ENST00000262865 | 11 | 15 | 226_290 | 428 | 488.0 | Region | Central sheet%2C part 2 | |
| Tgene | BPI | chr1:89357166 | chr20:36962832 | ENST00000262865 | 11 | 15 | 240_245 | 428 | 488.0 | Region | Cleavage sites for elastase | |
| Tgene | BPI | chr1:89357166 | chr20:36962832 | ENST00000262865 | 11 | 15 | 291_461 | 428 | 488.0 | Region | C-terminal barrel | |
| Tgene | BPI | chr1:89357166 | chr20:36962832 | ENST00000262865 | 11 | 15 | 32_42 | 428 | 488.0 | Region | Central sheet%2C part 1 | |
| Tgene | BPI | chr1:89357166 | chr20:36962832 | ENST00000262865 | 11 | 15 | 41_224 | 428 | 488.0 | Region | N-terminal barrel |
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Fusion Gene Sequence for GTF2B-BPI |
| For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. To have fusion amino acid sequence, we ran ORFfinder and chose the longest ORF among the all predicted ones. |
| >35166_35166_1_GTF2B-BPI_GTF2B_chr1_89357166_ENST00000370500_BPI_chr20_36962832_ENST00000262865_length(transcript)=637nt_BP=136nt ACGACTGCGTGGGTGAGTCGTCTATAAAAACTCATCTCTGCGCGTCTCTTCGCCACATTCGCTTCCTGCTTTCGGTGTGTCTGTTGTGTC TTGTTGCGGGCACCGCAGTCGCCGTGAAGATGGCGTCTACCAGCCGGTTGAATTGCTGCAGGATATCATGAACTACATTGTACCCATTCT TGTGCTGCCCAGGGTTAACGAGAAACTACAGAAAGGCTTCCCTCTCCCGACGCCGGCCAGAGTCCAGCTCTACAACGTAGTGCTTCAGCC TCACCAGAACTTCCTGCTGTTCGGTGCAGACGTTGTCTATAAATGAAGGCACCAGGGGTGCCGGGGGCTGTCAGCCACACCTGTTCCTGA TGGGCTGTGGGGCACCGGCTGCCTTTCCCCAGGGAATCCTCTCCAGATCTTAACCAAGAGCCCCTTGCAAACTTCTTCGACTCAGATTCA GAAATGATCTAAACACGAGGAAACATTATTCATTGGAAAAGTGCATGGTGTGTATTTTAGGGATTATGAGCTTCTTTCAAGGGCTAAGGC TGCAGAGATATTTCCTCCAGGAATCGTGTTTCAATTGTAACCAAGAAATTTCCATTTGTGCTTCATGAAAAAAAACTTCTGGTTTTTTTC >35166_35166_1_GTF2B-BPI_GTF2B_chr1_89357166_ENST00000370500_BPI_chr20_36962832_ENST00000262865_length(amino acids)=92AA_BP=33 MRVSSPHSLPAFGVSVVSCCGHRSRREDGVYQPVELLQDIMNYIVPILVLPRVNEKLQKGFPLPTPARVQLYNVVLQPHQNFLLFGADVV -------------------------------------------------------------- |
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Fusion Gene PPI Analysis for GTF2B-BPI |
| Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in |
| Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160) |
| Hgene | Hgene's interactors | Tgene | Tgene's interactors |
| - Retained PPIs in in-frame fusion. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Still interaction with |
| - Lost PPIs in in-frame fusion. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
| - Retained PPIs, but lost function due to frame-shift fusion. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
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Related Drugs for GTF2B-BPI |
| Drugs targeting genes involved in this fusion gene. (DrugBank Version 5.1.8 2021-05-08) |
| Partner | Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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Related Diseases for GTF2B-BPI |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
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